{ "_id": "6a0fff41acfb0bcc41c7a6c8", "Package": "BeeBDC", "Title": "Occurrence Data Cleaning", "Version": "1.3.4", "Authors@R": "c(\nperson(\"James B.\", \"Dorey\", , \"jbdorey@me.com\", role = c(\"aut\", \"cre\", \"cph\"),\ncomment = c(ORCID = \"0000-0003-2721-3842\")),\nperson(\"Robert L.\", \"O'Reilly\", , \"robert.oreilly@flinders.edu.au\", role = \"aut\",\ncomment = c(ORCID = \"0000-0001-5291-7396\")),\nperson(\"Silas\", \"Bossert\", , \"silas.bossert@wsu.edu\", role = \"aut\",\ncomment = c(ORCID = \"0000-0002-3620-5468\")),\nperson(\"Erica E.\", \"Fischer\", , \"fischeer@mail.gvsu.edu\", role = \"aut\",\ncomment = c(ORCID = \"0000-0002-8202-158X\"))\n)", "Description": "Flags and checks occurrence data that are in Darwin Core\nformat. The package includes generic functions and data as\nwell as some that are specific to bees. This package is meant\nto build upon and be complimentary to other excellent\noccurrence cleaning packages, including 'bdc' and\n'CoordinateCleaner'. This package uses datasets from several\nsources and particularly from the Discover Life Website,\ncreated by Ascher and Pickering (2020). For further\ninformation, please see the original publication and package\nwebsite. Publication - Dorey et al. (2023)\n and package website - Dorey et\nal. (2023) .", "License": "GPL (>= 3)", "URL": "https://jbdorey.github.io/BeeBDC/\nhttps://github.com/jbdorey/BeeBDC", "BugReports": "https://github.com/jbdorey/BeeBDC/issues", "Config/testthat/edition": "3", "Encoding": "UTF-8", "Language": "en-gb", "LazyData": "TRUE", "LazyDataCompression": "xz", "Roxygen": "list(markdown = TRUE)", "Config/roxygen2/version": "8.0.0", "Config/pak/sysreqs": "libabsl-dev cmake libgdal-dev gdal-bin libgeos-dev\nlibglpk-dev libicu-dev libjpeg-dev libpng-dev libxml2-dev\nlibssl-dev libproj-dev libsqlite3-dev libudunits2-dev\nlibx11-dev", "Repository": "https://jbdorey.r-universe.dev", "Date/Publication": "2026-05-22 05:05:03 UTC", "RemoteUrl": "https://github.com/jbdorey/beebdc", "RemoteRef": "HEAD", "RemoteSha": "0a8581f8e713c75dd9b7bcf5ff9e9f9e784d4ee4", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-22 06:54:28 UTC", "User": "root" }, "Author": "James B. Dorey [aut, cre, cph] (ORCID:\n),\nRobert L. 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occurrence records from the three species", "topics": [ "bees3sp" ] }, { "page": "beesChecklist", "title": "Download a country-level checklist of bees from Discover Life", "topics": [ "beesChecklist" ] }, { "page": "beesCountrySubset", "title": "A simple scientificName and country_suggested test dataset", "topics": [ "beesCountrySubset" ] }, { "page": "beesFlagged", "title": "A flagged dataset of 100 random bee occurrence records", "topics": [ "beesFlagged" ] }, { "page": "beesRaw", "title": "A dataset of 100 random bee occurrence records without flags or filters applied", "topics": [ "beesRaw" ] }, { "page": "beesTaxonomy", "title": "Download a nearly complete taxonomy of bees globally", "topics": [ "beesTaxonomy" ] }, { "page": "ChaoWrapper", "title": "Parallel estimation of species richness in a community using iChao", "topics": [ "ChaoWrapper" ] }, { "page": "chordDiagramR", "title": "Build a chord diagram of duplicate occurrence links", "topics": [ "chordDiagramR" ] }, { "page": 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all flags", "topics": [ "flagSummaryTable" ] }, { "page": "formattedCombiner", "title": "Combine the formatted USGS data with the main dataset", "topics": [ "formattedCombiner" ] }, { "page": "GBIFissues", "title": "Flags records with GBIF issues", "topics": [ "GBIFissues" ] }, { "page": "ggRichnessWrapper", "title": "ggplot2 extension for a Chao- and iNEXT-wrapper outputs", "topics": [ "ggRichnessWrapper" ] }, { "page": "HarmoniseR", "title": "Harmonise taxonomy of occurrence data", "topics": [ "harmoniseR" ] }, { "page": "idMatchR", "title": "Attempt to match database_ids from a prior run", "topics": [ "idMatchR" ] }, { "page": "importOccurrences", "title": "Imports the most-recent repoMerge data", "topics": [ "importOccurrences" ] }, { "page": "iNEXTwrapper", "title": "Parallel estimation of species richness in a community using iNEXT", "topics": [ "iNEXTwrapper" ] }, { "page": "interactiveMapR", "title": "Creates interactive html maps for species", "topics": [ "interactiveMapR" ] }, { "page": "jbd_CfC_chunker", "title": "Get country names from coordinates", "topics": [ "jbd_CfC_chunker" ] }, { "page": "jbd_coordCountryInconsistent", "title": "Flags coordinates that are inconsistent with the stated country name", "topics": [ "jbd_coordCountryInconsistent" ] }, { "page": "jbd_coordinates_precision", "title": "Flags coordinates for imprecision", "topics": [ "jbd_coordinates_precision" ] }, { "page": "jbd_coordinates_transposed", "title": "Identify transposed geographic coordinates", "concept": [ "prefilter" ], "topics": [ "jbd_coordinates_transposed" ] }, { "page": "jbd_create_figures", "title": "Create figures reporting the results of the bdc/BeeBDC packages", "topics": [ "jbd_create_figures" ] }, { "page": "jbd_Ctrans_chunker", "title": "Wraps jbd_coordinates_transposed to identify and fix transposed occurrences", "topics": [ "jbd_Ctrans_chunker" ] }, { "page": "manualOutlierFindeR", "title": "Finds outliers, and their duplicates, as determined by experts", "topics": [ "manualOutlierFindeR" ] }, { "page": "PaigeIntegrater", "title": "Integrate manually-cleaned data from Paige Chesshire", "topics": [ "PaigeIntegrater" ] }, { "page": "plotFlagSummary", "title": "Generate a plot summarising flagged data", "topics": [ "plotFlagSummary" ] }, { "page": "readr_BeeBDC", "title": "A wrapper for all of the data readr_functions", "topics": [ "readr_Arm", "readr_ASP", "readr_Bal", "readr_BBD", "readr_BeeBDC", "readr_BMin", "readr_BMont", "readr_CAES", "readr_Col", "readr_Dor", "readr_EaCO", "readr_Ecd", "readr_EcoS", "readr_EPEL", "readr_FSCA", "readr_Gai", "readr_GeoL", "readr_JoLa", "readr_KP", "readr_Lic", "readr_MABC", "readr_MEPB", "readr_MPUJ", "readr_PALA", "readr_SMC", "readr_STRI", "readr_VicWam" ] }, { "page": "repoFinder", "title": "Find GBIF, ALA, iDigBio, and SCAN files in a directory", "topics": [ "repoFinder" ] }, { "page": "repoMerge", "title": "Import occurrences from GBIF, ALA, iDigBio, and SCAN downloads", "topics": [ "repoMerge" ] 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